SMTL ID : 6v2b.2 (1 other biounit)

Complex of double mutant (T89V,K162T) of E. coli L-asparaginase II with L-Asn

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-tetramer

Ligands

4 x ASN: ASPARAGINE(Non-covalent)

ASN.1: 14 residues within 4Å: Chain A: G.18, T.19, Y.32, V.34, G.64, S.65, Q.66, G.95, V.96, D.97, A.121, M.122 Chain B: N.255, E.290 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:T.19, A:T.19, A:S.65, A:Q.66, A:Q.66, A:V.96, A:D.97, A:D.97, A:A.121, B:E.290 Water bridges: A:I.20 ASN.3: 12 residues within 4Å: Chain A: N.255, E.290 Chain B: G.18, T.19, V.34, G.64, S.65, Q.66, G.95, V.96, D.97, A.121 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.19, B:T.19, B:S.65, B:Q.66, B:V.96, B:D.97, B:A.121, A:E.290 Water bridges: B:I.20 ASN.5: 14 residues within 4Å: Chain C: G.18, T.19, Y.32, V.34, G.64, S.65, Q.66, G.95, V.96, D.97, A.121, M.122 Chain D: N.255, E.290 12 PLIP interactions: 11 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:T.19, C:T.19, C:Y.32, C:S.65, C:Q.66, C:Q.66, C:V.96, C:D.97, C:D.97, C:A.121, D:E.290 Water bridges: C:I.20 ASN.7: 12 residues within 4Å: Chain C: N.255, E.290 Chain D: G.18, T.19, V.34, G.64, S.65, Q.66, G.95, V.96, D.97, A.121 11 PLIP interactions: 8 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:T.19, D:T.19, D:S.65, D:Q.66, D:V.96, D:D.97, D:A.121, C:N.255, C:E.290 Water bridges: D:I.20, C:E.290

4 x CIT: CITRIC ACID(Non-functional Binders)

CIT.2: 5 residues within 4Å: Chain A: K.220, Y.243 Chain B: S.231, D.232, L.233 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:D.232, B:D.232, A:K.220, A:K.220 Salt bridges: B:K.236, A:K.220, A:K.220 CIT.4: 4 residues within 4Å: Chain A: S.231, L.233 Chain B: K.220, Y.243 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.233 Salt bridges: B:K.220 CIT.6: 5 residues within 4Å: Chain C: K.220, Y.243 Chain D: S.231, D.232, L.233 7 PLIP interactions: 5 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:K.220, C:K.220, C:Y.243, D:D.232 Salt bridges: C:K.220, C:K.220, D:K.236 CIT.8: 4 residues within 4Å: Chain C: S.231, L.233 Chain D: K.220, Y.243 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:L.233 Hydrogen bonds: D:Y.243 Salt bridges: D:K.220

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lubkowski, J. et al., Mechanism of Catalysis by l-Asparaginase. Biochemistry (2020)

Release Date

2020-05-20

Peptides

L-asparaginase 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
C

D
D

L-asparaginase 2

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